# Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008), # Using native and syntenically mapped cDNA alignments to improve de novo gene finding # Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013 # No extrinsic information on sequences given. # Initialising the parameters using config directory /augustus/config/ ... # Using protein profile unknown # --[0..50]--> unknown_A (18) <--[0..1]--> unknown_B (20) <--[2..40]--> unknown_C (46) <--[4..11]--> unknown_D (21) <--[0..1]--> unknown_E (40) <--[0..3]--> unknown_F (33) <--[0..6]--> unknown_G (21) <--[0..9]--> unknown_H (13) <--[0..1]--> unknown_I (33) <--[0..9]--> unknown_J (10) <--[3..20]--> unknown_K (45) <--[2..24]--> unknown_L (38) <--[0..11]--> unknown_M (45) <--[1..5]--> unknown_N (53) <--[0..1]--> unknown_O (18) <--[0..1]--> unknown_P (21) <--[9..54]--> unknown_R (14) <--[1..44]--> unknown_S (21) <--[0..17]--> unknown_T (14) <--[0..196]-- # fly version. Using default transition matrix. # Looks like ./tmp/Contig1641720180911_busco_2432604931_.temp is in fasta format. # We have hints for 0 sequences and for 0 of the sequences in the input set. # # ----- prediction on sequence number 1 (length = 38665, name = Contig16417) ----- # # Constraints/Hints: # (none) # Predicted genes for sequence number 1 on both strands # start gene g1 Contig16417 AUGUSTUS gene 3183 22398 0.01 + . g1 Contig16417 AUGUSTUS transcript 3183 22398 0.01 + . g1.t1 Contig16417 AUGUSTUS exon 3183 3223 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS start_codon 3191 3193 . + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 3224 7136 0.29 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 7256 7501 0.8 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 7569 7687 0.97 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 7778 8141 0.93 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 8316 8705 0.99 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 8821 8903 1 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 9021 9454 0.99 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 9655 9837 0.93 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 9960 10060 0.85 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 10190 10290 0.85 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 10379 12043 0.47 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 12218 12370 0.38 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 12505 12680 0.76 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 12857 12973 0.79 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 13075 13215 0.75 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 13372 14236 0.84 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 14377 14749 0.66 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 14916 15137 0.84 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 15258 15352 0.99 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 15515 16242 0.92 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 16373 16455 0.99 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 16611 17637 0.72 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 17768 18192 0.76 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 18321 20339 0.61 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 20409 20583 0.84 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS intron 20650 20705 0.61 + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 3191 3223 0.29 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 7137 7255 0.37 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 7137 7255 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 7502 7568 0.79 + 1 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 7502 7568 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 7688 7777 0.93 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 7688 7777 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 8142 8315 0.94 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 8142 8315 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 8706 8820 1 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 8706 8820 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 8904 9020 1 + 2 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 8904 9020 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 9455 9654 1 + 2 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 9455 9654 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 9838 9959 0.93 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 9838 9959 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 10061 10189 0.85 + 1 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 10061 10189 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 10291 10378 1 + 1 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 10291 10378 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 12044 12217 0.46 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 12044 12217 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 12371 12504 0.6 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 12371 12504 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 12681 12856 0.56 + 1 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 12681 12856 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 12974 13074 0.75 + 2 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 12974 13074 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 13216 13371 0.99 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 13216 13371 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 14237 14376 0.84 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 14237 14376 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 14750 14915 0.82 + 1 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 14750 14915 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 15138 15257 0.99 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 15138 15257 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 15353 15514 0.93 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 15353 15514 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 16243 16372 0.99 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 16243 16372 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 16456 16610 0.98 + 2 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 16456 16610 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 17638 17767 0.76 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 17638 17767 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 18193 18320 0.66 + 2 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 18193 18320 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 20340 20408 0.84 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 20340 20408 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 20584 20649 0.84 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 20584 20649 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS CDS 20706 20756 0.61 + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS exon 20706 22398 . + . transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS stop_codon 20754 20756 . + 0 transcript_id "g1.t1"; gene_id "g1"; Contig16417 AUGUSTUS tts 22398 22398 . + . transcript_id "g1.t1"; gene_id "g1"; # coding sequence = [atgaatttgtgtcgtaacttctttttctttgaggattttgaagttgggaaaacatacaagaaaaaagtgaccttgacca # atgtgtcctacactgtaaattactgcaaatatatcaatattacagagatgttaaaggacttcattgagattcagtttgaccccccaggacagatgtca # gctggactgacttgtgaaatgatggttactttcaaaccaatgattaacgaggacctcttcggagtggtgaacttcctatctcagactggaccgtttgc # aatacctctgaaatgtacaacaaagaaatgtgatttgtcaacagacactagtcgtatcgactttgggaccacagtcattggagagactctgaagagaa # catttaccctgaccaacaagggagccctggggacaaagtttgaattcttcaaggtcacaggtcagaaggagaggactgtgactacagctgccacttct # ctgggaggtctgacaacagcagataccatcagagcattcagtcctgattccacgtcagtagtggtcaagaaagacgtgacagcctcagtagagaagac # gccgggcgatgagaaaaagacagcggaggatgcagataaggccagtatgggaggactgggcacctcagatgaacagaacggcacccaggccgctgggg # aggggctcagtgtggctggggagggggatcaaggcgaagacgagcagcctttacaggaatcccctgacctggctgtcagtgagatggaggactatggt # acactggacgggatgaaggttggtctggttgccacaggagagttaggtccctttgcctccaccaaactggagatcatctggcagccccacattccagg # acgagtagacacggaattcctaatcacattctctgatcctctctctgacagtatctccatccaagctgtagccaatgctatagatgtcccagtgtggg # tggagagacagacagtggatcttaagatctgtatgtatgacagactgtaccaggacaccattattgtcaacaacagagcaaccactgccttgagactg # aagtttgaagtctgcaaagaactaaagaatcacttggaacttctgccaaaaacaggttacatccaggcacaatctaatttctcagcacagatgaaatt # tctgccaaggaaaagtctatttgaagaagctgggaaatatttcgacaaagaaactggtgtcctagaggcaccgatgataatcagggtagcggatcaga # cccagcctgtacccttcacagtccaggcagtcttgactacgtctgacatggagtttgacacaacagacattgacttcggctgctgcacaatttacgaa # tcaacaaaagcgaaaataaaactgaccaacaaatcaattctcccccaggagtttggttttgttggtcaccctgagtttgttgaaatacaacctaatga # tggttttggaaccttgctacctttggagacaatcgatctggaagttattttcagtcccaagaaagccagggattacaagtttgaactgaactgtaaat # cacttataaacagggagtttaagatccagtgtaagggtgtgggggtgcaccctcccctggaaatgtctgaccaagtcatccacttctcagccacgtcc # ctgtatgatgtgtccaccacctccttccacgtcgtcaactcccacacaagtacgaatgaattcacgcatccagtaccacgaatcgggaaaggtgatat # agcaccagtgggccccacctcctttgaatttgtggtaccagagggtgcaccactcactatatccccatctgttggcaccattgaacctgggcagaaat # gtccaatctgggtgagatttgcacccgagctaaatgaactagacatcaagaaggaggctgtacgaatggctaccaaggctttggaggctcaggcggag # aaagaatttgaggagaaactgaaacgagagagggaggaggcagatcaggccctgcaaaaagcaataggtaaaggaaaaggtaaagatgctaaatctcc # cacaaaaggtaaaggcaaagcttccccagcaccgtcactaacggtatcaggaccaaggcccataactcctccaaccgtggaaaccatttctaaagatg # tccacaatagcttgtatcttgaggtgcactgccctgttgttaagccaactctagttgtgatttctgacaatgggaaatccattctggacttcggagaa # gtttctcttggtcaaaatatcatcaaatcagtcaccatacaaaatatatccaacaaaactgtagagctgacgtcaaccatattgaacactggtggacc # attcctaatgctgaatgcactcagaatcctacctccagatggcacccataccatactgatatcatacactccagaaaagggagaagtgtttcatgagg # ttctggagatacagacaggccacatggctctacacatcaccttgacaggaaagggagtcagtccgatgattgagatcaacatgcctatgcaagatgga # gtcctggacatgggagcggtgttagcaggcgaatacctggagcgaacattcaagatgatgaactcctcctccttatcgatagactactgtatcaagtt # agacagtctgtctctacagagacacaatgaagctcaagctatcccagcattcatacagaaaaacaaaactacaaacctcagtgttggtacacaaaaca # acaatggccagaacgtatttgatttggtaccatcagaggggacagtgccccctggtagcagtattgatctaaccgtcacttttgccccggatcatccc # agtgactattattccgatggaattcgcattgaactatttggaaaggaagaaacacataattttatgatcaaaggaatggccaaacccagaattatgtt # tgtacatggaacagacgaccgaacccccgacattgaatccttggcagaggaggcccctgttcccacagaggacgaagatggaaaacttttacccaccc # ccgtcttgttcacactgaggagtatagctaaagagaacgacttcattcctggttctcgagacctctatgtgggatgtgtaaggacaatggctgtcagt # cagaagaagaacggtgaattccagtttgaaaatgttcaacttataaccccgaaaggattcaatattgaaccacaaaagggtatggtagaagctggtgc # tcttaaacccgtcacatttacatggactccacctgctggtcatgattgttctccccaggattttctgatagcgctgtatttagagcgtgcgacatga] # protein sequence = [MNLCRNFFFFEDFEVGKTYKKKVTLTNVSYTVNYCKYINITEMLKDFIEIQFDPPGQMSAGLTCEMMVTFKPMINEDL # FGVVNFLSQTGPFAIPLKCTTKKCDLSTDTSRIDFGTTVIGETLKRTFTLTNKGALGTKFEFFKVTGQKERTVTTAATSLGGLTTADTIRAFSPDSTS # VVVKKDVTASVEKTPGDEKKTAEDADKASMGGLGTSDEQNGTQAAGEGLSVAGEGDQGEDEQPLQESPDLAVSEMEDYGTLDGMKVGLVATGELGPFA # STKLEIIWQPHIPGRVDTEFLITFSDPLSDSISIQAVANAIDVPVWVERQTVDLKICMYDRLYQDTIIVNNRATTALRLKFEVCKELKNHLELLPKTG # YIQAQSNFSAQMKFLPRKSLFEEAGKYFDKETGVLEAPMIIRVADQTQPVPFTVQAVLTTSDMEFDTTDIDFGCCTIYESTKAKIKLTNKSILPQEFG # FVGHPEFVEIQPNDGFGTLLPLETIDLEVIFSPKKARDYKFELNCKSLINREFKIQCKGVGVHPPLEMSDQVIHFSATSLYDVSTTSFHVVNSHTSTN # EFTHPVPRIGKGDIAPVGPTSFEFVVPEGAPLTISPSVGTIEPGQKCPIWVRFAPELNELDIKKEAVRMATKALEAQAEKEFEEKLKREREEADQALQ # KAIGKGKGKDAKSPTKGKGKASPAPSLTVSGPRPITPPTVETISKDVHNSLYLEVHCPVVKPTLVVISDNGKSILDFGEVSLGQNIIKSVTIQNISNK # TVELTSTILNTGGPFLMLNALRILPPDGTHTILISYTPEKGEVFHEVLEIQTGHMALHITLTGKGVSPMIEINMPMQDGVLDMGAVLAGEYLERTFKM # MNSSSLSIDYCIKLDSLSLQRHNEAQAIPAFIQKNKTTNLSVGTQNNNGQNVFDLVPSEGTVPPGSSIDLTVTFAPDHPSDYYSDGIRIELFGKEETH # NFMIKGMAKPRIMFVHGTDDRTPDIESLAEEAPVPTEDEDGKLLPTPVLFTLRSIAKENDFIPGSRDLYVGCVRTMAVSQKKNGEFQFENVQLITPKG # FNIEPQKGMVEAGALKPVTFTWTPPAGHDCSPQDFLIALYLERAT] # end gene g1 ### # start gene g2 Contig16417 AUGUSTUS gene 22603 32632 0.01 - . g2 Contig16417 AUGUSTUS transcript 22603 32632 0.01 - . g2.t1 Contig16417 AUGUSTUS tts 22603 22603 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 22603 22684 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 22731 22906 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS stop_codon 22746 22748 . - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 22907 23044 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 23201 23298 0.26 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 23417 23927 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 24021 25156 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 25238 26519 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 26654 26918 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 26968 27025 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 27108 27532 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 27595 27697 0.02 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 27753 28281 0.09 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 28415 28634 0.15 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 28744 28851 0.05 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 29003 29194 0.06 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 29251 29399 0.06 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 29460 29567 0.02 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 29641 29727 0.02 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 29785 29966 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 30035 30126 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS intron 30183 32445 0.01 - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 22746 22906 0.01 - 2 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 23045 23200 0.2 - 2 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 23045 23200 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 23299 23416 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 23299 23416 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 23928 24020 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 23928 24020 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 25157 25237 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 25157 25237 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 26520 26653 0.01 - 2 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 26520 26653 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 26919 26967 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 26919 26967 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 27026 27107 0.01 - 1 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 27026 27107 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 27533 27594 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 27533 27594 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 27698 27752 0.09 - 1 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 27698 27752 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 28282 28414 0.12 - 2 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 28282 28414 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 28635 28743 0.16 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 28635 28743 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 28852 29002 0.04 - 1 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 28852 29002 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 29195 29250 0.06 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 29195 29250 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 29400 29459 0.16 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 29400 29459 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 29568 29640 0.02 - 1 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 29568 29640 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 29728 29784 0.02 - 1 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 29728 29784 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 29967 30034 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 29967 30034 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 30127 30182 0.01 - 2 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 30127 30182 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS CDS 32446 32503 0.01 - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS exon 32446 32632 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS start_codon 32501 32503 . - 0 transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS tss 32632 32632 . - . transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 22758 22799 4.91 - 0 target "unknown_T[1..14]"; target_start 586; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 22800 22862 6.29 - 0 target "unknown_S[1..21]"; target_start 565; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 22866 22906 4.11 - 2 target "unknown_R[1..14]"; target_start 550; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23045 23045 1 - 0 target "unknown_R[1..1]"; target_start 550; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23088 23150 5.7 - 0 target "unknown_P[1..21]"; target_start 515; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23151 23200 4.87 - 2 target "unknown_O[2..18]"; target_start 497; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23299 23302 3.03 - 0 target "unknown_O[1..2]"; target_start 497; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23303 23416 5.85 - 0 target "unknown_N[16..53]"; target_start 444; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23928 23972 8.29 - 0 target "unknown_N[1..15]"; target_start 444; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 23982 24020 4.8 - 0 target "unknown_M[33..45]"; target_start 396; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 25157 25237 6.18 - 0 target "unknown_M[6..32]"; target_start 396; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 26520 26534 4.08 - 0 target "unknown_M[1..5]"; target_start 396; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 26544 26653 3.17 - 2 target "unknown_L[2..38]"; target_start 355; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 26919 26922 0.899 - 0 target "unknown_L[1..2]"; target_start 355; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 27050 27107 3.52 - 1 target "unknown_K[26..45]"; target_start 287; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 27533 27594 3.34 - 0 target "unknown_K[6..26]"; target_start 287; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 27698 27712 4.2 - 0 target "unknown_K[1..5]"; target_start 287; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 27722 27751 2.85 - 0 target "unknown_J[1..10]"; target_start 274; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28293 28391 7.72 - 0 target "unknown_I[1..33]"; target_start 237; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28392 28414 10.3 - 2 target "unknown_H[6..13]"; target_start 224; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28635 28650 14.2 - 0 target "unknown_H[1..6]"; target_start 224; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28678 28740 7.61 - 0 target "unknown_G[1..21]"; target_start 194; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28852 28950 6.11 - 0 target "unknown_F[1..33]"; target_start 160; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 28951 29002 9.77 - 1 target "unknown_E[23..40]"; target_start 120; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29195 29250 8.84 - 0 target "unknown_E[5..23]"; target_start 120; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29400 29411 6.22 - 0 target "unknown_E[1..4]"; target_start 120; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29412 29459 7.37 - 0 target "unknown_D[6..21]"; target_start 99; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29568 29582 1.96 - 0 target "unknown_D[1..5]"; target_start 99; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29607 29640 3.26 - 1 target "unknown_C[35..46]"; target_start 45; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29728 29784 7.52 - 1 target "unknown_C[16..35]"; target_start 45; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 29967 30013 1.97 - 0 target "unknown_C[1..16]"; target_start 45; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 30026 30034 0.903 - 0 target "unknown_B[18..20]"; target_start 21; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 30127 30177 4.81 - 0 target "unknown_B[1..17]"; target_start 21; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 30178 30182 0.112 - 2 target "unknown_A[17..18]"; target_start 3; transcript_id "g2.t1"; gene_id "g2"; Contig16417 AUGUSTUS protein_match 32446 32494 5.18 - 0 target "unknown_A[1..17]"; target_start 3; transcript_id "g2.t1"; gene_id "g2"; # coding sequence = [atgccaacaatatctgtaaataaggaggaattgtttaaagcgctcggaaaacgttacacttttaaagaatttgatgaac # tttgctttgagtttggagtagaaccagaggaagcagatgaagatgaaataagagaaaacccagatgctgcattagaatggaaaatagaaattggtgca # aatagatatgatttgctgtgtattgagggtctggttaggggtttgctggtgttcctagaaagaattgaagctcccagatacaaacctatccctccgtg # gcctggtaaaacacagagacttaaaattttaccaagaaccgctgaagtaagaccctatgcagtggcagctgttttaagaaacattacctttactccgg # aggtatacaaaagtttcattgaccttcaggacaaacttcatcagaatctctgcaggaggaggacattagtagcgataggaacacatgacttggatacg # cttaaagggcctttctattacgatgccaaaccaccctcagagatcaagttcaaagctctgaaccagacggaggaaaagactgcaactgagctgatgga # aatctactctaatgagagtcacttgaagcagtacttgcacattatccaggacaaaccagtgtatcccattatctacgacagtaatggtgtggtgctat # ccatgcctccaattataaatggggaccatagtaagataacactaaatacaaagaatgtcttcatcgaatgcacagccaccgaccttaacaaagccaag # attacccttgacacactcgtcaccatgtttgggcagtactgctccccaccttatgaaggaatcgagtctgcagaagtagtgaatccatgtggaaccag # tgtaatgtaccctgagcttcactacagactagaagaaattgatgtatcagatacaaacagcaagataggaatatgcattcctcctggtgaaatggcca # gactgttgaccaaaatgtgcctggaatcgacccctttcgacagtggcaacaaaataatgttgcatgctcgcattgatttagagggtctagatgatctg # aatttgcagttgtttgattggttttcttccttgactggtctacatgtgattcatgcttgtgatgttgtggaggatgtggccattgcttatggatacaa # caatattgtgaaaacaattccacaaaccaactgtattgggaaccagtatcctatcaacaaattgtcagacttactacgacaagagatagcagcagctg # gttttacagaagtactctcatttgctttatgctcgcgagacgatgtggcagacaagttaggcaaaaatatcaaggacataaacgcagtacatattgcc # aatcccaaaacactggaatttcaggttgccaggacaacattgcttccaggaatactgaaaactctgtgtaaaaacagtcacatgccattaccactaaa # gttgtttgaaatttctgatgtagttttgcgtgatccagccaaggatgttggagcaaaaaatgagaggtggatgtgtgcagtgaactataacaagtcct # ctgggtttgaaattgtgaagggtcttctggacagggtcatgaagctgctggaaattaaaccagggaaaggaaaaacgggctactacattgaggcctgt # gatgattcggcatatttccaaggacgatgtgctacagtcgtactacgagggaaggccattgggaaaattggagtgctgcatcctgatgttgtgacaaa # atttgaattaaacaacccctgttctgcttttgaaatatcagttgaacccttgttaagcagaacatga] # protein sequence = [MPTISVNKEELFKALGKRYTFKEFDELCFEFGVEPEEADEDEIRENPDAALEWKIEIGANRYDLLCIEGLVRGLLVFL # ERIEAPRYKPIPPWPGKTQRLKILPRTAEVRPYAVAAVLRNITFTPEVYKSFIDLQDKLHQNLCRRRTLVAIGTHDLDTLKGPFYYDAKPPSEIKFKA # LNQTEEKTATELMEIYSNESHLKQYLHIIQDKPVYPIIYDSNGVVLSMPPIINGDHSKITLNTKNVFIECTATDLNKAKITLDTLVTMFGQYCSPPYE # GIESAEVVNPCGTSVMYPELHYRLEEIDVSDTNSKIGICIPPGEMARLLTKMCLESTPFDSGNKIMLHARIDLEGLDDLNLQLFDWFSSLTGLHVIHA # CDVVEDVAIAYGYNNIVKTIPQTNCIGNQYPINKLSDLLRQEIAAAGFTEVLSFALCSRDDVADKLGKNIKDINAVHIANPKTLEFQVARTTLLPGIL # KTLCKNSHMPLPLKLFEISDVVLRDPAKDVGAKNERWMCAVNYNKSSGFEIVKGLLDRVMKLLEIKPGKGKTGYYIEACDDSAYFQGRCATVVLRGKA # IGKIGVLHPDVVTKFELNNPCSAFEISVEPLLSRT] # sequence of block unknown_T 586 [NPCSAFEISVEPLL] 600 # sequence of block unknown_S 565 [GKAIGKIGVLHPDVVTKFELN] 586 # sequence of block unknown_R 550 [DSAYFQGRCATVVL] 564 # sequence of block unknown_P 515 [SSGFEIVKGLLDRVMKLLEIK] 536 # sequence of block unknown_O 497 [KDVGAKNERWMCAVNYNK] 515 # sequence of block unknown_N 444 [INAVHIANPKTLEFQVARTTLLPGILKTLCKNSHMPLPLKLFEISDVVLRDPA] 497 # sequence of block unknown_M 396 [CIGNQYPINKLSDLLRQEIAAAGFTEVLSFALCSRDDVADKLGKN] 441 # sequence of block unknown_L 355 [QLFDWFSSLTGLHVIHACDVVEDVAIAYGYNNIVKTIP] 393 # sequence of block unknown_K 287 [SVMYPELHYRLEEIDVSDTNSKIGICIPPGEMARLLTKMCLESTP] 332 # sequence of block unknown_J 274 [GIESAEVVNP] 284 # sequence of block unknown_I 237 [NTKNVFIECTATDLNKAKITLDTLVTMFGQYCS] 270 # sequence of block unknown_H 224 [PPIINGDHSKITL] 237 # sequence of block unknown_G 194 [ESHLKQYLHIIQDKPVYPIIY] 215 # sequence of block unknown_F 160 [PFYYDAKPPSEIKFKALNQTEEKTATELMEIYS] 193 # sequence of block unknown_E 120 [TFTPEVYKSFIDLQDKLHQNLCRRRTLVAIGTHDLDTLKG] 160 # sequence of block unknown_D 99 [KILPRTAEVRPYAVAAVLRNI] 120 # sequence of block unknown_C 45 [NPDAALEWKIEIGANRYDLLCIEGLVRGLLVFLERIEAPRYKPIPP] 91 # sequence of block unknown_B 21 [KEFDELCFEFGVEPEEADED] 41 # sequence of block unknown_A 3 [ISVNKEELFKALGKRYTF] 21 # end gene g2 ### # command line: # /augustus/bin/augustus --codingseq=1 --proteinprofile=eukaryota_odb9/prfl/EOG093705EY.prfl --predictionStart=2758 --predictionEnd=49007 --species=fly ./tmp/Contig1641720180911_busco_2432604931_.temp